A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2024-11-21, 23:29 UTC
based on data in:
/home/mf019/longread_pangenome/expanded_dataset_analysis
General Statistics
| Sample Name | N50 (Kbp) | Assembly Length (Mbp) | # contigs | # bases | # CDS | % Borreliella burgdorferi | % Top 5 Species | % Unclassified |
|---|---|---|---|---|---|---|---|---|
| B331PP | 903.7Kbp | 1.4Mbp | 19 | 1409078 | 1379 | |||
| B331PP-checkpoint | 19 | 1409078 | 1379 | |||||
| B418PP | 902.8Kbp | 1.4Mbp | 18 | 1376853 | 1336 | |||
| B500PP | 903.7Kbp | 1.4Mbp | 19 | 1429303 | 1402 | |||
| ESI26H | 910.4Kbp | 1.3Mbp | 64 | 1276481 | 1213 | |||
| ESI36H | 909.9Kbp | 1.2Mbp | 11 | 1182078 | 1118 | |||
| ESI403H | 910.4Kbp | 1.4Mbp | 34 | 1364813 | 1338 | |||
| ESI425H | 342.8Kbp | 1.3Mbp | 21 | 1260215 | 1199 | |||
| GCA_002151465.1_ASM215146v1_genomic | 909.9Kbp | 1.3Mbp | 12 | 1288112 | 1274 | |||
| GCA_002151485.1_ASM215148v1_genomic | 910.7Kbp | 1.3Mbp | 11 | 1301554 | 1305 | |||
| GCA_002151505.1_ASM215150v1_genomic | 909.9Kbp | 1.3Mbp | 13 | 1341182 | 1339 | |||
| GCA_002442595.2_ASM244259v2_genomic | 903.7Kbp | 1.4Mbp | 19 | 1409089 | 1379 | |||
| GCA_003367295.1_ASM336729v1_genomic | 908.5Kbp | 1.3Mbp | 16 | 1280240 | 1237 | |||
| GCA_019134655.1_ASM1913465v1_genomic | 910.0Kbp | 1.2Mbp | 11 | 1217256 | 1168 | |||
| GCA_019464575.1_ASM1946457v1_genomic | 903.7Kbp | 1.4Mbp | 19 | 1429304 | 1405 | |||
| GCA_024662155.1_ASM2466215v1_genomic | 903.2Kbp | 1.4Mbp | 18 | 1392060 | 1357 | |||
| GCA_024662175.1_ASM2466217v1_genomic | 920.8Kbp | 1.4Mbp | 18 | 1417706 | 1400 | |||
| GCA_024662195.1_ASM2466219v1_genomic | 909.7Kbp | 1.5Mbp | 21 | 1513701 | 1505 | |||
| GCA_030439605.1_ASM3043960v1_genomic | 910.7Kbp | 1.0Mbp | 4 | 1007753 | 919 | |||
| GCA_030439625.1_ASM3043962v1_genomic | 910.4Kbp | 1.0Mbp | 4 | 1007827 | 918 | |||
| GCA_030439665.1_ASM3043966v1_genomic | 902.8Kbp | 1.0Mbp | 4 | 1000122 | 915 | |||
| GCA_030440345.1_ASM3044034v1_genomic | 907.8Kbp | 1.0Mbp | 4 | 1006065 | 918 | |||
| GCA_030444985.1_ASM3044498v1_genomic | 910.6Kbp | 1.0Mbp | 4 | 1007632 | 917 | |||
| GCA_030445005.1_ASM3044500v1_genomic | 910.4Kbp | 1.0Mbp | 4 | 1007828 | 918 | |||
| GCA_030445025.1_ASM3044502v1_genomic | 910.7Kbp | 1.0Mbp | 4 | 1008124 | 919 | |||
| GCA_030445065.1_ASM3044506v1_genomic | 910.2Kbp | 1.0Mbp | 4 | 1006503 | 920 | |||
| GCA_032595375.1_ASM3259537v1_genomic | 909.6Kbp | 1.0Mbp | 4 | 1007086 | 922 | |||
| GCA_032595515.1_ASM3259551v1_genomic | 911.4Kbp | 1.0Mbp | 4 | 1004596 | 903 | |||
| GCA_032595535.1_ASM3259553v1_genomic | 909.7Kbp | 1.0Mbp | 4 | 1005759 | 907 | |||
| GCA_032595755.1_ASM3259575v1_genomic | 910.1Kbp | 1.0Mbp | 4 | 1006563 | 882 | |||
| GCA_038801875.1_ASM3880187v1_genomic | 920.0Kbp | 0.9Mbp | 2 | 946504 | 846 | |||
| GCA_040790715.1_ASM4079071v1_genomic | 908.7Kbp | 1.3Mbp | 14 | 1289159 | 1216 | |||
| GCA_040790735.1_ASM4079073v1_genomic | 909.5Kbp | 1.4Mbp | 18 | 1391486 | 1359 | |||
| GCA_040790745.1_ASM4079074v1_genomic | 902.8Kbp | 1.4Mbp | 18 | 1371468 | 1331 | |||
| GCA_040790755.1_ASM4079075v1_genomic | 902.7Kbp | 1.3Mbp | 16 | 1321156 | 1300 | |||
| GCA_040790765.1_ASM4079076v1_genomic | 910.1Kbp | 1.4Mbp | 19 | 1397896 | 1369 | |||
| GCA_040790775.1_ASM4079077v1_genomic | 907.6Kbp | 1.4Mbp | 17 | 1417953 | 1383 | |||
| GCA_040790785.1_ASM4079078v1_genomic | 910.0Kbp | 1.4Mbp | 18 | 1383845 | 1347 | |||
| GCA_040790795.1_ASM4079079v1_genomic | 916.8Kbp | 1.3Mbp | 16 | 1325608 | 1251 | |||
| GCA_040790805.1_ASM4079080v1_genomic | 907.9Kbp | 1.2Mbp | 12 | 1216633 | 1169 | |||
| GCA_040819585.1_PFhe_I_PB_Ill_cons_genomic | 910.3Kbp | 1.3Mbp | 15 | 1341511 | 1317 | |||
| GCF_000008685.2_ASM868v2_genomic | 910.7Kbp | 1.5Mbp | 22 | 1521208 | 1508 | |||
| GCF_000021405.1_ASM2140v1_genomic | 906.7Kbp | 1.3Mbp | 15 | 1345494 | 1327 | |||
| GCF_000166635.1_ASM16663v1_genomic | 902.2Kbp | 1.3Mbp | 17 | 1339539 | 1311 | |||
| GCF_000166655.1_ASM16665v1_genomic | 922.8Kbp | 1.5Mbp | 21 | 1531091 | 1519 | |||
| GCF_000171735.2_ASM17173v2_genomic | 85.3Kbp | 1.5Mbp | 27 | 1453013 | 1441 | |||
| GCF_000172295.2_ASM17229v2_genomic | 35.7Kbp | 1.3Mbp | 53 | 1344204 | 1302 | |||
| GCF_000172315.2_ASM17231v2_genomic | 83.1Kbp | 1.3Mbp | 26 | 1294354 | 1252 | |||
| GCF_000172335.2_ASM17233v2_genomic | 169.2Kbp | 1.5Mbp | 24 | 1485884 | 1475 | |||
| GCF_000181555.2_ASM18155v2_genomic | 908.8Kbp | 1.5Mbp | 32 | 1469834 | 1418 | |||
| GCF_000181575.2_ASM18157v2_genomic | 171.0Kbp | 1.3Mbp | 20 | 1321434 | 1306 | |||
| GCF_000181715.2_ASM18171v2_genomic | 169.5Kbp | 1.3Mbp | 25 | 1295451 | 1255 | |||
| GCF_000181855.2_ASM18185v2_genomic | 37.0Kbp | 1.4Mbp | 54 | 1427907 | 1411 | |||
| GCF_002151465.1_ASM215146v1_genomic | 909.9Kbp | 1.3Mbp | 12 | 1288112 | 1274 | |||
| GCF_002151485.1_ASM215148v1_genomic | 910.7Kbp | 1.3Mbp | 11 | 1301554 | 1305 | |||
| GCF_002151505.1_ASM215150v1_genomic | 909.9Kbp | 1.3Mbp | 13 | 1341182 | 1339 | |||
| GCF_002442595.2_ASM244259v2_genomic | 903.7Kbp | 1.4Mbp | 19 | 1409089 | 1379 | |||
| GCF_003367295.1_ASM336729v1_genomic | 908.5Kbp | 1.3Mbp | 16 | 1280240 | 1237 | |||
| GCF_019134655.1_ASM1913465v1_genomic | 910.0Kbp | 1.2Mbp | 11 | 1217256 | 1168 | |||
| GCF_019464575.1_ASM1946457v1_genomic | 903.7Kbp | 1.4Mbp | 19 | 1429304 | 1405 | |||
| GCF_024662155.1_ASM2466215v1_genomic | 903.2Kbp | 1.4Mbp | 18 | 1392060 | 1357 | |||
| GCF_024662175.1_ASM2466217v1_genomic | 920.8Kbp | 1.4Mbp | 18 | 1417706 | 1400 | |||
| GCF_024662195.1_ASM2466219v1_genomic | 909.7Kbp | 1.5Mbp | 21 | 1513701 | 1505 | |||
| GCF_040790715.1_ASM4079071v1_genomic | 908.7Kbp | 1.3Mbp | 14 | 1289159 | 1216 | |||
| GCF_040790735.1_ASM4079073v1_genomic | 909.5Kbp | 1.4Mbp | 18 | 1391486 | 1359 | |||
| GCF_040790745.1_ASM4079074v1_genomic | 902.8Kbp | 1.4Mbp | 18 | 1371468 | 1331 | |||
| GCF_040790755.1_ASM4079075v1_genomic | 902.7Kbp | 1.3Mbp | 16 | 1321156 | 1300 | |||
| GCF_040790765.1_ASM4079076v1_genomic | 910.1Kbp | 1.4Mbp | 19 | 1397896 | 1369 | |||
| GCF_040790775.1_ASM4079077v1_genomic | 907.6Kbp | 1.4Mbp | 17 | 1417953 | 1383 | |||
| GCF_040790785.1_ASM4079078v1_genomic | 910.0Kbp | 1.4Mbp | 18 | 1383845 | 1347 | |||
| GCF_040790795.1_ASM4079079v1_genomic | 916.8Kbp | 1.3Mbp | 16 | 1325608 | 1251 | |||
| GCF_040790805.1_ASM4079080v1_genomic | 907.9Kbp | 1.2Mbp | 12 | 1216633 | 1169 | |||
| GCF_040819585.1_PFhe_I_PB_Ill_cons_genomic | 910.3Kbp | 1.3Mbp | 15 | 1341511 | 1317 | |||
| K89HH | 274.3Kbp | 1.5Mbp | 150 | 1557782 | 1479 | |||
| UCT109H | 910.6Kbp | 1.5Mbp | 28 | 1476377 | 1438 | |||
| UCT110H | 906.8Kbp | 1.4Mbp | 114 | 1417187 | 1343 | |||
| UCT113H | 905.8Kbp | 1.3Mbp | 253 | 1304891 | 1189 | 82.6% | 83.8% | 1.2% |
| UCT113H_kraken2 | 82.6% | 83.8% | 1.2% | |||||
| UCT124H | 900.9Kbp | 1.5Mbp | 50 | 1510565 | 1476 | |||
| UCT29H | 910.5Kbp | 1.6Mbp | 24 | 1559716 | 1547 | |||
| UCT30H | 905.5Kbp | 1.5Mbp | 89 | 1471861 | 1385 | 83.1% | 85.4% | 1.1% |
| UCT30H_kraken2 | 83.1% | 85.4% | 1.1% | |||||
| UCT31H | 910.6Kbp | 1.5Mbp | 32 | 1531745 | 1514 | |||
| UCT32H | 921.1Kbp | 1.5Mbp | 57 | 1501989 | 1459 | 86.0% | 86.0% | 1.8% |
| UCT32H_kraken2 | 86.0% | 86.0% | 1.8% | |||||
| UCT35H | 910.0Kbp | 1.3Mbp | 33 | 1350407 | 1278 | 78.8% | 87.9% | 9.1% |
| UCT35H_kraken2 | 78.8% | 87.9% | 9.1% | |||||
| UCT50H | 902.8Kbp | 1.3Mbp | 90 | 1341231 | 1284 | 72.2% | 77.8% | 4.4% |
| UCT50H_kraken2 | 72.2% | 77.8% | 4.4% | |||||
| UCT92H | 906.7Kbp | 1.5Mbp | 62 | 1537760 | 1512 | 95.2% | 96.8% | 1.6% |
| UCT92H_kraken2 | 95.2% | 96.8% | 1.6% | |||||
| UCT95H | 893.6Kbp | 1.5Mbp | 15 | 1491903 | 3042 | |||
| UCT96H | 900.9Kbp | 1.5Mbp | 35 | 1481271 | 1451 | |||
| UNY1032P | 910.6Kbp | 1.5Mbp | 18 | 1459435 | 1428 | |||
| UNY1038P | 915.7Kbp | 1.4Mbp | 19 | 1403595 | 1354 | |||
| UNY1083P | 923.1Kbp | 1.4Mbp | 226 | 1494188 | 1405 | 56.2% | 56.6% | 30.5% |
| UNY1083P_kraken2 | 56.2% | 56.6% | 30.5% | |||||
| UNY1085P | 903.4Kbp | 1.4Mbp | 18 | 1409080 | 1350 | |||
| UNY1090P | 912.7Kbp | 1.4Mbp | 19 | 1413250 | 1377 | |||
| UNY1128P | 213.8Kbp | 1.4Mbp | 277 | 1488312 | 1399 | 75.8% | 76.2% | 5.1% |
| UNY1128P_kraken2 | 75.8% | 76.2% | 5.1% | |||||
| UNY149P | 915.7Kbp | 1.4Mbp | 19 | 1427032 | 1389 | |||
| UNY169P | 902.8Kbp | 1.3Mbp | 17 | 1346761 | 1303 | |||
| UNY172P | 903.4Kbp | 1.4Mbp | 16 | 1352494 | 1298 | |||
| UNY193P | 910.1Kbp | 1.4Mbp | 19 | 1403883 | 1358 | |||
| UNY203P | 910.1Kbp | 1.3Mbp | 17 | 1326072 | 1289 | |||
| UNY208P | 912.7Kbp | 1.4Mbp | 19 | 1413253 | 1376 | |||
| UNY990P | 902.8Kbp | 1.4Mbp | 17 | 1367194 | 1301 | |||
| URI101H | 910.5Kbp | 1.6Mbp | 32 | 1554475 | 1513 | |||
| URI102H | 910.6Kbp | 1.4Mbp | 44 | 1442774 | 1392 | |||
| URI103H | 921.1Kbp | 1.5Mbp | 56 | 1474413 | 1424 | |||
| URI107H | 910.6Kbp | 1.5Mbp | 49 | 1505434 | 1479 | |||
| URI111H | 910.6Kbp | 1.5Mbp | 23 | 1539609 | 1513 | |||
| URI112H | 903.1Kbp | 1.4Mbp | 85 | 1431440 | 1366 | 82.4% | 85.9% | 2.4% |
| URI112H_kraken2 | 82.4% | 85.9% | 2.4% | |||||
| URI117H | 434.9Kbp | 1.4Mbp | 160 | 1384478 | 1299 | 84.4% | 85.6% | 1.2% |
| URI117H_kraken2 | 84.4% | 85.6% | 1.2% | |||||
| URI118H | 921.0Kbp | 1.4Mbp | 109 | 1380118 | 1317 | |||
| URI120H | 910.7Kbp | 1.6Mbp | 105 | 1576195 | 1544 | |||
| URI33H | 902.8Kbp | 1.3Mbp | 44 | 1353948 | 1272 | 90.9% | 93.2% | 2.3% |
| URI33H_kraken2 | 90.9% | 93.2% | 2.3% | |||||
| URI34H | 910.1Kbp | 1.4Mbp | 79 | 1376021 | 1295 | 84.8% | 86.1% | 1.3% |
| URI34H_kraken2 | 84.8% | 86.1% | 1.3% | |||||
| URI36H | 927.7Kbp | 1.5Mbp | 53 | 1482383 | 1423 | 73.6% | 90.6% | 7.5% |
| URI36H_kraken2 | 73.6% | 90.6% | 7.5% | |||||
| URI39H | 920.7Kbp | 1.6Mbp | 28 | 1557202 | 1542 | |||
| URI40H | 910.6Kbp | 1.5Mbp | 82 | 1509727 | 1470 | 72.0% | 76.8% | 1.2% |
| URI40H_kraken2 | 72.0% | 76.8% | 1.2% | |||||
| URI41H | 914.4Kbp | 1.5Mbp | 84 | 1468867 | 1437 | |||
| URI42H | 910.6Kbp | 1.5Mbp | 74 | 1460998 | 1422 | |||
| URI44H | 921.1Kbp | 1.4Mbp | 75 | 1417636 | 1341 | 76.0% | 81.3% | 1.3% |
| URI44H_kraken2 | 76.0% | 81.3% | 1.3% | |||||
| URI45H | 42.8Kbp | 1.5Mbp | 350 | 1585394 | 1458 | 81.1% | 84.0% | 0.9% |
| URI45H_kraken2 | 81.1% | 84.0% | 0.9% | |||||
| URI46H | 906.8Kbp | 1.4Mbp | 95 | 1437550 | 1363 | 87.4% | 90.5% | 1.1% |
| URI46H_kraken2 | 87.4% | 90.5% | 1.1% | |||||
| URI47H | 921.2Kbp | 1.5Mbp | 29 | 1512039 | 1477 | |||
| URI48H | 902.8Kbp | 1.4Mbp | 22 | 1377993 | 1323 | 95.5% | 95.5% | 4.5% |
| URI48H_kraken2 | 95.5% | 95.5% | 4.5% | |||||
| URI56H | 903.3Kbp | 1.3Mbp | 230 | 1297641 | 1187 | |||
| URI86H | 919.1Kbp | 1.4Mbp | 88 | 1406230 | 1329 | |||
| URI87H | 910.6Kbp | 1.5Mbp | 66 | 1505755 | 1466 | |||
| URI88H | 906.7Kbp | 1.5Mbp | 33 | 1540602 | 1502 | |||
| URI89H | 910.7Kbp | 1.5Mbp | 85 | 1553229 | 1526 | 74.1% | 77.6% | 1.2% |
| URI89H_kraken2 | 74.1% | 77.6% | 1.2% | |||||
| URI91H | 910.7Kbp | 1.6Mbp | 26 | 1588266 | 1574 | |||
| URI93H | 910.6Kbp | 1.5Mbp | 29 | 1474340 | 1426 | |||
| UWI247P | 912.3Kbp | 1.4Mbp | 17 | 1359286 | 1300 | |||
| UWI248P | 910.0Kbp | 1.4Mbp | 18 | 1387586 | 1337 | |||
| UWI263P | 907.9Kbp | 1.4Mbp | 19 | 1409038 | 1372 | |||
| UWI283P | 903.4Kbp | 1.3Mbp | 16 | 1332290 | 1277 | |||
| XYZ459H | 903.2Kbp | 1.3Mbp | 24 | 1272095 | 1199 | 79.2% | 91.7% | 8.3% |
| XYZ459H_kraken2 | 79.2% | 91.7% | 8.3% | |||||
| roary_pangenome_v5_filtered_nsp | 2115 | 1671363 | 1833 | |||||
| roary_pangenome_v5_filtered_sp | 4673 | 3347826 | 4137 | |||||
| roary_pangenome_v5_nsp | 2762 | 1769304 | 1911 | |||||
| roary_pangenome_v5_nsp-checkpoint | 2762 | 1769304 | 1911 |
QUAST
Quality assessment tool for genome assemblies.URL: http://quast.bioinf.spbau.ruDOI: 10.1093/bioinformatics/btt086
Assembly Statistics
| Sample Name | N50 (Kbp) | L50 (K) | Largest contig (Kbp) | Length (Mbp) | Misassemblies | Mismatches/100kbp | Indels/100kbp | Genome Fraction |
|---|---|---|---|---|---|---|---|---|
| B331PP | 903.7Kbp | 0.0K | 903.7Kbp | 1.4Mbp | 24 | 932.37 | 60.88 | 78.8% |
| B418PP | 902.8Kbp | 0.0K | 902.8Kbp | 1.4Mbp | 16 | 851.29 | 51.15 | 80.2% |
| B500PP | 903.7Kbp | 0.0K | 903.7Kbp | 1.4Mbp | 36 | 988.31 | 69.57 | 82.5% |
| ESI26H | 910.4Kbp | 0.0K | 910.4Kbp | 1.3Mbp | 14 | 488.39 | 31.81 | 72.9% |
| ESI36H | 909.9Kbp | 0.0K | 909.9Kbp | 1.2Mbp | 14 | 738.26 | 33.18 | 72.1% |
| ESI403H | 910.4Kbp | 0.0K | 910.4Kbp | 1.4Mbp | 10 | 541.99 | 35.63 | 83.1% |
| ESI425H | 342.8Kbp | 0.0K | 434.8Kbp | 1.3Mbp | 12 | 813.35 | 39.89 | 73.8% |
| GCA_002151465.1_ASM215146v1_genomic | 909.9Kbp | 0.0K | 909.9Kbp | 1.3Mbp | 1 | 44.27 | 10.74 | 82.7% |
| GCA_002151485.1_ASM215148v1_genomic | 910.7Kbp | 0.0K | 910.7Kbp | 1.3Mbp | 4 | 110.48 | 14.05 | 83.1% |
| GCA_002151505.1_ASM215150v1_genomic | 909.9Kbp | 0.0K | 909.9Kbp | 1.3Mbp | 2 | 93.47 | 15.29 | 85.5% |
| GCA_002442595.2_ASM244259v2_genomic | 903.7Kbp | 0.0K | 903.7Kbp | 1.4Mbp | 24 | 932.37 | 60.88 | 78.8% |
| GCA_003367295.1_ASM336729v1_genomic | 908.5Kbp | 0.0K | 908.5Kbp | 1.3Mbp | 16 | 758.69 | 44.05 | 75.0% |
| GCA_019134655.1_ASM1913465v1_genomic | 910.0Kbp | 0.0K | 910.0Kbp | 1.2Mbp | 13 | 837.36 | 39.56 | 73.3% |
| GCA_019464575.1_ASM1946457v1_genomic | 903.7Kbp | 0.0K | 903.7Kbp | 1.4Mbp | 30 | 948.06 | 69.76 | 81.1% |
| GCA_024662155.1_ASM2466215v1_genomic | 903.2Kbp | 0.0K | 903.2Kbp | 1.4Mbp | 23 | 892.56 | 59.71 | 79.5% |
| GCA_024662175.1_ASM2466217v1_genomic | 920.8Kbp | 0.0K | 920.8Kbp | 1.4Mbp | 18 | 844.86 | 51.95 | 78.7% |
| GCA_024662195.1_ASM2466219v1_genomic | 909.7Kbp | 0.0K | 909.7Kbp | 1.5Mbp | 0 | 1.98 | 4.36 | 99.4% |
| GCA_030439605.1_ASM3043960v1_genomic | 910.7Kbp | 0.0K | 910.7Kbp | 1.0Mbp | 0 | 3.28 | 3.37 | 66.2% |
| GCA_030439625.1_ASM3043962v1_genomic | 910.4Kbp | 0.0K | 910.4Kbp | 1.0Mbp | 1 | 331.98 | 17.27 | 66.2% |
| GCA_030439665.1_ASM3043966v1_genomic | 902.8Kbp | 0.0K | 902.8Kbp | 1.0Mbp | 1 | 551.26 | 21.27 | 65.6% |
| GCA_030440345.1_ASM3044034v1_genomic | 907.8Kbp | 0.0K | 907.8Kbp | 1.0Mbp | 1 | 529.06 | 19.61 | 65.4% |
| GCA_030444985.1_ASM3044498v1_genomic | 910.6Kbp | 0.0K | 910.6Kbp | 1.0Mbp | 0 | 8.73 | 4.07 | 66.2% |
| GCA_030445005.1_ASM3044500v1_genomic | 910.4Kbp | 0.0K | 910.4Kbp | 1.0Mbp | 1 | 331.98 | 17.17 | 66.2% |
| GCA_030445025.1_ASM3044502v1_genomic | 910.7Kbp | 0.0K | 910.7Kbp | 1.0Mbp | 1 | 337.59 | 16.97 | 66.2% |
| GCA_030445065.1_ASM3044506v1_genomic | 910.2Kbp | 0.0K | 910.2Kbp | 1.0Mbp | 1 | 286.20 | 12.82 | 66.1% |
| GCA_032595375.1_ASM3259537v1_genomic | 909.6Kbp | 0.0K | 909.6Kbp | 1.0Mbp | 1 | 347.73 | 17.68 | 66.2% |
| GCA_032595515.1_ASM3259551v1_genomic | 911.4Kbp | 0.0K | 911.4Kbp | 1.0Mbp | 2 | 338.46 | 17.20 | 65.2% |
| GCA_032595535.1_ASM3259553v1_genomic | 909.7Kbp | 0.0K | 909.7Kbp | 1.0Mbp | 2 | 569.01 | 19.27 | 64.8% |
| GCA_032595755.1_ASM3259575v1_genomic | 910.1Kbp | 0.0K | 910.1Kbp | 1.0Mbp | 0 | 586.83 | 24.44 | 62.7% |
| GCA_038801875.1_ASM3880187v1_genomic | 920.0Kbp | 0.0K | 920.0Kbp | 0.9Mbp | 1 | 522.63 | 18.34 | 62.0% |
| GCA_040790715.1_ASM4079071v1_genomic | 908.7Kbp | 0.0K | 908.7Kbp | 1.3Mbp | 20 | 730.03 | 47.72 | 77.2% |
| GCA_040790735.1_ASM4079073v1_genomic | 909.5Kbp | 0.0K | 909.5Kbp | 1.4Mbp | 20 | 833.46 | 45.12 | 78.7% |
| GCA_040790745.1_ASM4079074v1_genomic | 902.8Kbp | 0.0K | 902.8Kbp | 1.4Mbp | 18 | 860.85 | 53.89 | 81.0% |
| GCA_040790755.1_ASM4079075v1_genomic | 902.7Kbp | 0.0K | 902.7Kbp | 1.3Mbp | 21 | 838.73 | 53.63 | 80.8% |
| GCA_040790765.1_ASM4079076v1_genomic | 910.1Kbp | 0.0K | 910.1Kbp | 1.4Mbp | 16 | 832.72 | 44.26 | 77.7% |
| GCA_040790775.1_ASM4079077v1_genomic | 907.6Kbp | 0.0K | 907.6Kbp | 1.4Mbp | 4 | 1.06 | 3.96 | 92.9% |
| GCA_040790785.1_ASM4079078v1_genomic | 910.0Kbp | 0.0K | 910.0Kbp | 1.4Mbp | 14 | 813.36 | 47.49 | 78.8% |
| GCA_040790795.1_ASM4079079v1_genomic | 916.8Kbp | 0.0K | 916.8Kbp | 1.3Mbp | 15 | 684.36 | 44.78 | 76.1% |
| GCA_040790805.1_ASM4079080v1_genomic | 907.9Kbp | 0.0K | 907.9Kbp | 1.2Mbp | 4 | 51.83 | 13.27 | 79.7% |
| GCA_040819585.1_PFhe_I_PB_Ill_cons_genomic | 910.3Kbp | 0.0K | 910.3Kbp | 1.3Mbp | 4 | 525.65 | 34.93 | 78.5% |
| GCF_000008685.2_ASM868v2_genomic | 910.7Kbp | 0.0K | 910.7Kbp | 1.5Mbp | 0 | 0.00 | 0.00 | 100.0% |
| GCF_000021405.1_ASM2140v1_genomic | 906.7Kbp | 0.0K | 906.7Kbp | 1.3Mbp | 7 | 511.34 | 38.10 | 83.3% |
| GCF_000166635.1_ASM16663v1_genomic | 902.2Kbp | 0.0K | 902.2Kbp | 1.3Mbp | 15 | 825.88 | 48.73 | 79.1% |
| GCF_000166655.1_ASM16665v1_genomic | 922.8Kbp | 0.0K | 922.8Kbp | 1.5Mbp | 29 | 992.45 | 62.44 | 80.6% |
| GCF_000171735.2_ASM17173v2_genomic | 85.3Kbp | 0.0K | 231.4Kbp | 1.5Mbp | 16 | 811.09 | 42.01 | 78.2% |
| GCF_000172295.2_ASM17229v2_genomic | 35.7Kbp | 0.0K | 88.9Kbp | 1.3Mbp | 9 | 850.71 | 63.80 | 77.5% |
| GCF_000172315.2_ASM17231v2_genomic | 83.1Kbp | 0.0K | 209.2Kbp | 1.3Mbp | 9 | 697.00 | 38.81 | 74.4% |
| GCF_000172335.2_ASM17233v2_genomic | 169.2Kbp | 0.0K | 408.6Kbp | 1.5Mbp | 12 | 444.76 | 34.50 | 88.2% |
| GCF_000181555.2_ASM18155v2_genomic | 908.8Kbp | 0.0K | 908.8Kbp | 1.5Mbp | 18 | 881.52 | 57.29 | 79.3% |
| GCF_000181575.2_ASM18157v2_genomic | 171.0Kbp | 0.0K | 471.2Kbp | 1.3Mbp | 10 | 571.41 | 34.76 | 77.4% |
| GCF_000181715.2_ASM18171v2_genomic | 169.5Kbp | 0.0K | 216.3Kbp | 1.3Mbp | 16 | 778.57 | 42.03 | 76.3% |
| GCF_000181855.2_ASM18185v2_genomic | 37.0Kbp | 0.0K | 147.8Kbp | 1.4Mbp | 24 | 939.06 | 76.21 | 80.4% |
| GCF_002151465.1_ASM215146v1_genomic | 909.9Kbp | 0.0K | 909.9Kbp | 1.3Mbp | 1 | 44.27 | 10.74 | 82.7% |
| GCF_002151485.1_ASM215148v1_genomic | 910.7Kbp | 0.0K | 910.7Kbp | 1.3Mbp | 4 | 110.48 | 14.05 | 83.1% |
| GCF_002151505.1_ASM215150v1_genomic | 909.9Kbp | 0.0K | 909.9Kbp | 1.3Mbp | 2 | 93.47 | 15.29 | 85.5% |
| GCF_002442595.2_ASM244259v2_genomic | 903.7Kbp | 0.0K | 903.7Kbp | 1.4Mbp | 24 | 932.37 | 60.88 | 78.8% |
| GCF_003367295.1_ASM336729v1_genomic | 908.5Kbp | 0.0K | 908.5Kbp | 1.3Mbp | 16 | 758.69 | 44.05 | 75.0% |
| GCF_019134655.1_ASM1913465v1_genomic | 910.0Kbp | 0.0K | 910.0Kbp | 1.2Mbp | 13 | 837.36 | 39.56 | 73.3% |
| GCF_019464575.1_ASM1946457v1_genomic | 903.7Kbp | 0.0K | 903.7Kbp | 1.4Mbp | 30 | 948.06 | 69.76 | 81.1% |
| GCF_024662155.1_ASM2466215v1_genomic | 903.2Kbp | 0.0K | 903.2Kbp | 1.4Mbp | 23 | 892.56 | 59.71 | 79.5% |
| GCF_024662175.1_ASM2466217v1_genomic | 920.8Kbp | 0.0K | 920.8Kbp | 1.4Mbp | 18 | 844.86 | 51.95 | 78.7% |
| GCF_024662195.1_ASM2466219v1_genomic | 909.7Kbp | 0.0K | 909.7Kbp | 1.5Mbp | 0 | 1.98 | 4.36 | 99.4% |
| GCF_040790715.1_ASM4079071v1_genomic | 908.7Kbp | 0.0K | 908.7Kbp | 1.3Mbp | 20 | 730.03 | 47.72 | 77.2% |
| GCF_040790735.1_ASM4079073v1_genomic | 909.5Kbp | 0.0K | 909.5Kbp | 1.4Mbp | 20 | 833.46 | 45.12 | 78.7% |
| GCF_040790745.1_ASM4079074v1_genomic | 902.8Kbp | 0.0K | 902.8Kbp | 1.4Mbp | 18 | 860.85 | 53.89 | 81.0% |
| GCF_040790755.1_ASM4079075v1_genomic | 902.7Kbp | 0.0K | 902.7Kbp | 1.3Mbp | 21 | 838.73 | 53.63 | 80.8% |
| GCF_040790765.1_ASM4079076v1_genomic | 910.1Kbp | 0.0K | 910.1Kbp | 1.4Mbp | 16 | 832.72 | 44.26 | 77.7% |
| GCF_040790775.1_ASM4079077v1_genomic | 907.6Kbp | 0.0K | 907.6Kbp | 1.4Mbp | 4 | 1.06 | 3.96 | 92.9% |
| GCF_040790785.1_ASM4079078v1_genomic | 910.0Kbp | 0.0K | 910.0Kbp | 1.4Mbp | 14 | 813.36 | 47.49 | 78.8% |
| GCF_040790795.1_ASM4079079v1_genomic | 916.8Kbp | 0.0K | 916.8Kbp | 1.3Mbp | 15 | 684.36 | 44.78 | 76.1% |
| GCF_040790805.1_ASM4079080v1_genomic | 907.9Kbp | 0.0K | 907.9Kbp | 1.2Mbp | 4 | 51.83 | 13.27 | 79.7% |
| GCF_040819585.1_PFhe_I_PB_Ill_cons_genomic | 910.3Kbp | 0.0K | 910.3Kbp | 1.3Mbp | 4 | 525.65 | 34.93 | 78.5% |
| K89HH | 274.3Kbp | 0.0K | 552.7Kbp | 1.5Mbp | 20 | 794.74 | 55.63 | 85.1% |
| UCT109H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 12 | 119.40 | 16.16 | 93.1% |
| UCT110H | 906.8Kbp | 0.0K | 906.8Kbp | 1.4Mbp | 18 | 747.51 | 42.21 | 78.0% |
| UCT113H | 905.8Kbp | 0.0K | 905.8Kbp | 1.3Mbp | 19 | 683.13 | 35.66 | 75.1% |
| UCT124H | 900.9Kbp | 0.0K | 900.9Kbp | 1.5Mbp | 9 | 405.69 | 34.88 | 90.0% |
| UCT29H | 910.5Kbp | 0.0K | 910.5Kbp | 1.6Mbp | 19 | 224.26 | 28.36 | 97.1% |
| UCT30H | 905.5Kbp | 0.0K | 905.5Kbp | 1.5Mbp | 30 | 777.99 | 55.55 | 79.2% |
| UCT31H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 16 | 228.94 | 28.73 | 94.2% |
| UCT32H | 921.1Kbp | 0.0K | 921.1Kbp | 1.5Mbp | 28 | 932.44 | 58.02 | 80.1% |
| UCT35H | 910.0Kbp | 0.0K | 910.0Kbp | 1.3Mbp | 19 | 684.11 | 34.37 | 74.8% |
| UCT50H | 902.8Kbp | 0.0K | 902.8Kbp | 1.3Mbp | 16 | 796.43 | 55.42 | 78.5% |
| UCT92H | 906.7Kbp | 0.0K | 906.7Kbp | 1.5Mbp | 29 | 909.46 | 55.27 | 80.0% |
| UCT95H | 893.6Kbp | 0.0K | 893.6Kbp | 1.5Mbp | 20 | 917.34 | 850.00 | 74.4% |
| UCT96H | 900.9Kbp | 0.0K | 900.9Kbp | 1.5Mbp | 20 | 434.17 | 32.70 | 90.8% |
| UNY1032P | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 3 | 88.25 | 15.50 | 93.7% |
| UNY1038P | 915.7Kbp | 0.0K | 915.7Kbp | 1.4Mbp | 18 | 743.29 | 45.05 | 78.4% |
| UNY1083P | 923.1Kbp | 0.0K | 923.1Kbp | 1.4Mbp | 28 | 795.09 | 55.07 | 80.3% |
| UNY1085P | 903.4Kbp | 0.0K | 903.4Kbp | 1.4Mbp | 19 | 878.26 | 57.40 | 79.8% |
| UNY1090P | 912.7Kbp | 0.0K | 912.7Kbp | 1.4Mbp | 17 | 827.41 | 42.21 | 79.0% |
| UNY1128P | 213.8Kbp | 0.0K | 709.5Kbp | 1.4Mbp | 27 | 828.82 | 65.41 | 81.7% |
| UNY149P | 915.7Kbp | 0.0K | 915.7Kbp | 1.4Mbp | 21 | 841.47 | 49.76 | 80.0% |
| UNY169P | 902.8Kbp | 0.0K | 902.8Kbp | 1.3Mbp | 18 | 855.10 | 53.06 | 80.4% |
| UNY172P | 903.4Kbp | 0.0K | 903.4Kbp | 1.4Mbp | 17 | 841.18 | 53.26 | 79.0% |
| UNY193P | 910.1Kbp | 0.0K | 910.1Kbp | 1.4Mbp | 10 | 769.19 | 46.76 | 77.0% |
| UNY203P | 910.1Kbp | 0.0K | 910.1Kbp | 1.3Mbp | 15 | 731.32 | 33.69 | 74.6% |
| UNY208P | 912.7Kbp | 0.0K | 912.7Kbp | 1.4Mbp | 14 | 772.90 | 41.67 | 78.5% |
| UNY990P | 902.8Kbp | 0.0K | 902.8Kbp | 1.4Mbp | 14 | 807.88 | 53.28 | 78.8% |
| URI101H | 910.5Kbp | 0.0K | 910.5Kbp | 1.6Mbp | 18 | 200.18 | 22.77 | 94.4% |
| URI102H | 910.6Kbp | 0.0K | 910.6Kbp | 1.4Mbp | 10 | 92.81 | 11.59 | 91.2% |
| URI103H | 921.1Kbp | 0.0K | 921.1Kbp | 1.5Mbp | 25 | 869.46 | 52.92 | 80.5% |
| URI107H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 12 | 127.59 | 12.91 | 93.0% |
| URI111H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 21 | 251.16 | 28.36 | 94.2% |
| URI112H | 903.1Kbp | 0.0K | 903.1Kbp | 1.4Mbp | 26 | 827.54 | 54.85 | 79.2% |
| URI117H | 434.9Kbp | 0.0K | 461.8Kbp | 1.4Mbp | 16 | 738.38 | 49.21 | 76.7% |
| URI118H | 921.0Kbp | 0.0K | 921.0Kbp | 1.4Mbp | 21 | 777.62 | 48.77 | 78.8% |
| URI120H | 910.7Kbp | 0.0K | 910.7Kbp | 1.6Mbp | 15 | 241.92 | 30.56 | 94.7% |
| URI33H | 902.8Kbp | 0.0K | 902.8Kbp | 1.3Mbp | 18 | 777.30 | 49.44 | 79.8% |
| URI34H | 910.1Kbp | 0.0K | 910.1Kbp | 1.4Mbp | 9 | 704.15 | 41.21 | 75.9% |
| URI36H | 927.7Kbp | 0.0K | 927.7Kbp | 1.5Mbp | 39 | 973.06 | 63.98 | 82.6% |
| URI39H | 920.7Kbp | 0.0K | 920.7Kbp | 1.6Mbp | 15 | 216.20 | 22.67 | 96.5% |
| URI40H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 15 | 147.59 | 20.18 | 93.4% |
| URI41H | 914.4Kbp | 0.0K | 914.4Kbp | 1.5Mbp | 13 | 166.82 | 22.52 | 91.7% |
| URI42H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 12 | 153.47 | 20.25 | 90.3% |
| URI44H | 921.1Kbp | 0.0K | 921.1Kbp | 1.4Mbp | 24 | 798.63 | 51.27 | 78.8% |
| URI45H | 42.8Kbp | 0.0K | 254.7Kbp | 1.5Mbp | 21 | 859.07 | 53.87 | 80.8% |
| URI46H | 906.8Kbp | 0.0K | 906.8Kbp | 1.4Mbp | 29 | 817.66 | 52.04 | 79.3% |
| URI47H | 921.2Kbp | 0.0K | 921.2Kbp | 1.5Mbp | 31 | 924.47 | 58.01 | 80.9% |
| URI48H | 902.8Kbp | 0.0K | 902.8Kbp | 1.4Mbp | 18 | 854.78 | 48.47 | 79.7% |
| URI56H | 903.3Kbp | 0.0K | 903.3Kbp | 1.3Mbp | 14 | 728.86 | 48.69 | 77.9% |
| URI86H | 919.1Kbp | 0.0K | 919.1Kbp | 1.4Mbp | 24 | 763.12 | 43.83 | 78.0% |
| URI87H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 12 | 152.86 | 15.37 | 93.8% |
| URI88H | 906.7Kbp | 0.0K | 906.7Kbp | 1.5Mbp | 34 | 919.68 | 56.37 | 81.5% |
| URI89H | 910.7Kbp | 0.0K | 910.7Kbp | 1.5Mbp | 17 | 195.47 | 23.38 | 94.1% |
| URI91H | 910.7Kbp | 0.0K | 910.7Kbp | 1.6Mbp | 12 | 114.59 | 13.08 | 96.1% |
| URI93H | 910.6Kbp | 0.0K | 910.6Kbp | 1.5Mbp | 15 | 137.80 | 21.54 | 93.4% |
| UWI247P | 912.3Kbp | 0.0K | 912.3Kbp | 1.4Mbp | 16 | 747.05 | 44.21 | 76.9% |
| UWI248P | 910.0Kbp | 0.0K | 910.0Kbp | 1.4Mbp | 18 | 784.23 | 52.06 | 77.0% |
| UWI263P | 907.9Kbp | 0.0K | 907.9Kbp | 1.4Mbp | 25 | 829.11 | 51.82 | 78.6% |
| UWI283P | 903.4Kbp | 0.0K | 903.4Kbp | 1.3Mbp | 20 | 872.33 | 51.52 | 77.2% |
| XYZ459H | 903.2Kbp | 0.0K | 903.2Kbp | 1.3Mbp | 8 | 757.97 | 44.71 | 75.2% |
Number of Contigs
This plot shows the number of contigs found for each assembly, broken down by length.
Bakta
1.10.0
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids.URL: https://github.com/oschwengers/baktaDOI: 10.1099/mgen.0.000685
This barplot shows the distribution of different types of features found in each sample.
Bakta can detect different features:
- tRNAs
- tmRNAs
- rRNAs
- ncRNAs
- ncRNA regions
- CRISPR arrays
- CDSs
- pseudogenes
- hypotheticals
- signal peptides
- sORFs
- gaps
- oriCs
- oriVs
- oriTs
This barplot shows you the distribution of these different types of features found in each sample.
Kraken
Taxonomic classification tool that uses exact k-mer matches to find the lowest common ancestor (LCA) of a given sequence.URL: https://ccb.jhu.edu/software/krakenDOI: 10.1186/gb-2014-15-3-r46
Top taxa
The number of reads falling into the top 5 taxa across different ranks.
To make this plot, the percentage of each sample assigned to a given taxa is summed across all samples. The counts for these top 5 taxa are then plotted for each of the 9 different taxa ranks. The unclassified count is always shown across all taxa ranks.
The total number of reads is approximated by dividing the number of unclassified reads by the percentage of
the library that they account for.
Note that this is only an approximation, and that kraken percentages don't always add to exactly 100%.
The category "Other" shows the difference between the above total read count and the sum of the read counts in the top 5 taxa shown + unclassified. This should cover all taxa not in the top 5, +/- any rounding errors.
Note that any taxon that does not exactly fit a taxon rank (eg. - or G2) is ignored.
Software Versions
Software Versions lists versions of software tools extracted from file contents.
| Software | Version |
|---|---|
| Bakta | 1.10.0 |